Sense-antisense gene-pairs in breast cancer and associated pathological pathways (Q36561721)

14 August 2017

Sense-antisense gene-pairs in breast cancer and associated pathological pathways (English)

1 reference

14 August 2017

Oleg V Grinchuk

1

1 reference

14 August 2017

Efthymios Motakis

2

1 reference

14 August 2017

Surya Pavan Yenamandra

3

1 reference

14 August 2017

Ghim Siong Ow

4

1 reference

14 August 2017

Piroon Jenjaroenpun

5

1 reference

14 August 2017

Zhiqun Tang

6

1 reference

14 August 2017

Aliaksandr A Yarmishyn

7

1 reference

14 August 2017

Anna V Ivshina

8

1 reference

14 August 2017

Vladimir A Kuznetsov

9

1 reference

14 August 2017

language of work or name

English

0 references

publication date

28 October 2015

1 reference

14 August 2017

1 reference

14 August 2017

6

1 reference

14 August 2017

39

1 reference

14 August 2017

42197-42221

1 reference

describes a project that uses

14 August 2017

Cytoscape

object named as

Cytoscape

2 references

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

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NCYM promotes calpain-mediated Myc-nick production in human MYCN-amplified neuroblastoma cells

30 September 2017

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Simultaneous inhibition of deubiquitinating enzymes (DUBs) and autophagy synergistically kills breast cancer cells

30 September 2017

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Natural antisense transcripts as therapeutic targets

30 September 2017

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Pre-mRNA splicing in cancer: the relevance in oncogenesis, treatment and drug resistance

30 September 2017

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Antisense transcription at the TRPM2 locus as a novel prognostic marker and therapeutic target in prostate cancer.

30 September 2017

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Principles and methods of integrative genomic analyses in cancer

30 September 2017

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Gene-dosage dependent overexpression at the 13q amplicon identifies DIS3 as candidate oncogene in colorectal cancer progression.

30 September 2017

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30 September 2017

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Gene regulation by antisense transcription

30 September 2017

1 reference

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Identification and use of biomarkers in treatment strategies for triple-negative breast cancer subtypes

30 September 2017

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Molecular mechanisms of ETS transcription factor-mediated tumorigenesis

30 September 2017

1 reference

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Master regulators of FGFR2 signalling and breast cancer risk

30 September 2017

1 reference

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Comparative RNA-seq analysis reveals potential mechanisms mediating the conversion to androgen independence in an LNCaP progression cell model

30 September 2017

1 reference

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Splicing and beyond: the many faces of the Prp19 complex

30 September 2017

1 reference

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Aurora kinase A inhibition-induced autophagy triggers drug resistance in breast cancer cells

30 September 2017

1 reference

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Comprehensive molecular portraits of human breast tumours

30 September 2017

1 reference

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Bidirectional regulation between WDR83 and its natural antisense transcript DHPS in gastric cancer

30 September 2017

1 reference

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Subgroup-specific alternative splicing in medulloblastoma

30 September 2017

1 reference

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RNA-based therapeutics: current progress and future prospects.

30 September 2017

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Digital gene expression profiling of primary acute lymphoblastic leukemia cells

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Perivascular human endometrial mesenchymal stem cells express pathways relevant to self-renewal, lineage specification, and functional phenotype

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Inhibition of proteasome deubiquitinating activity as a new cancer therapy

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Single-stranded noncoding RNAs mediate local epigenetic alterations at gene promoters in rat cell lines.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Extensive relationship between antisense transcription and alternative splicing in the human genome.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Cancer-associated splicing variant of tumor suppressor AIMP2/p38: pathological implication in tumorigenesis

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

GABP controls a critical transcription regulatory module that is essential for maintenance and differentiation of hematopoietic stem/progenitor cells.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Altered antisense-to-sense transcript ratios in breast cancer

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Gene expression profiling of human breast tissue samples using SAGE-Seq

30 September 2017

1 reference

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Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences

30 September 2017

1 reference

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A gene expression signature identifies two prognostic subgroups of basal breast cancer

30 September 2017

1 reference

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Gene expression in histologically normal epithelium from breast cancer patients and from cancer-free prophylactic mastectomy patients shares a similar profile

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

The landscape of somatic copy-number alteration across human cancers

30 September 2017

1 reference

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Complex sense-antisense architecture of TNFAIP1/POLDIP2 on 17q11.2 represents a novel transcriptional structural-functional gene module involved in breast cancer progression

30 September 2017

1 reference

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Critical requirement of GABPalpha for normal T cell development

30 September 2017

1 reference

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Amplification of LAPTM4B and YWHAZ contributes to chemotherapy resistance and recurrence of breast cancer

30 September 2017

1 reference

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Integrative analysis of the human cis-antisense gene pairs, miRNAs and their transcription regulation patterns.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Data-driven approach to predict survival of cancer patients: estimation of microarray genes' prediction significance by Cox proportional hazard regression model

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Identification of differentially expressed sense and antisense transcript pairs in breast epithelial tissues

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Aurora-A and hBora join the game of Polo.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Proliferative genes dominate malignancy-risk gene signature in histologically-normal breast tissue

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

The spliceosome: design principles of a dynamic RNP machine

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

arrayQualityMetrics--a bioconductor package for quality assessment of microarray data

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Antisense transcription: a critical look in both directions

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Expression of a noncoding RNA is elevated in Alzheimer's disease and drives rapid feed-forward regulation of beta-secretase

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Bortezomib/docetaxel combination therapy in patients with anthracycline-pretreated advanced/metastatic breast cancer: a phase I/II dose-escalation study

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Gene expression signatures, clinicopathological features, and individualized therapy in breast cancer

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Prediction of graft-versus-host disease in humans by donor gene-expression profiling

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Localizing hotspots of antisense transcription

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

The Ets transcription factor GABP is required for cell-cycle progression

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

GABPalpha regulates Oct-3/4 expression in mouse embryonic stem cells.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Genome-wide natural antisense transcription: coupling its regulation to its different regulatory mechanisms

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

BAL1 and BBAP are regulated by a gamma interferon-responsive bidirectional promoter and are overexpressed in diffuse large B-cell lymphomas with a prominent inflammatory infiltrate

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Natural antisense and noncoding RNA transcripts as potential drug targets

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Adjusting batch effects in microarray expression data using empirical Bayes methods

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

In the pursuit of complexity: systems medicine in cancer biology.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

X chromosomal abnormalities in basal-like human breast cancer

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Gene expression profiling spares early breast cancer patients from adjuvant therapy: derived and validated in two population-based cohorts

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Oncogenic pathway signatures in human cancers as a guide to targeted therapies

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Antisense transcription in the mammalian transcriptome

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Cytoscape: a software environment for integrated models of biomolecular interaction networks

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2−ΔΔCT Method

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Expression of the thyroid hormone receptor gene, erbAalpha, in B lymphocytes: alternative mRNA processing is independent of differentiation but correlates with antisense RNA levels.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Sense-antisense gene pairs: sequence, transcription, and structure are not conserved between human and mouse

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

An integrative genomic and transcriptomic analysis reveals molecular pathways and networks regulated by copy number aberrations in basal-like, HER2 and luminal cancers

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Definition of clinically distinct molecular subtypes in estrogen receptor-positive breast carcinomas through genomic grade

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Regulation of Aurora-A kinase gene expression via GABP recruitment of TRAP220/MED1.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

EDGE: extraction and analysis of differential gene expression.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Cell cycle-dependent regulation of the Skp2 promoter by GA-binding protein

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Estrogen receptor α mediates proliferation of breast cancer MCF-7 cells via a p21/PCNA/E2F1-dependent pathway.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Meta-analysis of transcriptome reveals let-7b as an unfavorable prognostic biomarker and predicts molecular and clinical subclasses in high-grade serous ovarian carcinoma.

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Targeting the deregulated spliceosome core machinery in cancer cells triggers mTOR blockade and autophagy

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Pscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Genetic alterations and oncogenic pathways associated with breast cancer subtypes

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Wrap53, a natural p53 antisense transcript required for p53 induction upon DNA damage.

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

A phase I/II study of bortezomib and capecitabine in patients with metastatic breast cancer previously treated with taxanes and/or anthracyclines

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Genetic reclassification of histologic grade delineates new clinical subtypes of breast cancer.

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4747219

Predicting outcome in follicular lymphoma by using interactive gene pairs

21 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26517092

12 December 2020

inferred from PubMed ID database lookup

A phase II study of the combination of endocrine treatment and bortezomib in patients with endocrine-resistant metastatic breast cancer

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26517092

12 December 2020

inferred from PubMed ID database lookup

Comparative expression analysis uncovers novel features of endogenous antisense transcription

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26517092

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.18632/ONCOTARGET.6255

1 reference

14 August 2017

1 reference

14 August 2017

PubMed publication ID

26517092

1 reference